Would just like to thank everyone for all of their helpful suggestions. Was doing a lot of replies off list. Thanks again.<br><br>Louis<br><br><br><div class="gmail_quote">On Tue, Mar 1, 2011 at 1:18 AM, Pavel Afonine <span dir="ltr"><<a href="mailto:pafonine@lbl.gov">pafonine@lbl.gov</a>></span> wrote:<br>
<blockquote class="gmail_quote" style="margin: 0pt 0pt 0pt 0.8ex; border-left: 1px solid rgb(204, 204, 204); padding-left: 1ex;"> Hi Jared,<div class="im"><br>
<br>
<blockquote class="gmail_quote" style="margin: 0pt 0pt 0pt 0.8ex; border-left: 1px solid rgb(204, 204, 204); padding-left: 1ex;">
2. In PyMOL (or another similarly capable program), load the molecule, remove the unwanted hydrogens, and save the new pdb. If you're not familiar with PyMOL selection syntax, try something like this:<br>
<br>
load model_reduce.pdb<br>
remove (elem H and not resi 10)<br>
save model_resi10_H.pdb, model_reduce<br>
</blockquote>
<br></div>
you could do it in PHENIX:<br>
<br>
phenix.pdbtools model_with_H.pdb remove="element H and not (chain A and resseq 10)"<br><font color="#888888">
<br>
Pavel.</font><div><div></div><div class="h5"><br>
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